HsaINT0090416 @ hg19
Intron Retention
Gene
ENSG00000172037 | LAMB2
Description
laminin, beta 2 (laminin S) [Source:HGNC Symbol;Acc:6487]
Coordinates
chr3:49160565-49161064:-
Coord C1 exon
chr3:49160880-49161064
Coord A exon
chr3:49160807-49160879
Coord C2 exon
chr3:49160565-49160806
Length
73 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TCTGCCTCTGCCCAATTTAGGTG
3' ss Score
10.22
Exon sequences
Seq C1 exon
GCGTGAAATTGGGGAGGCCACTGAGCACCTGACTCAGCTCGAGGCAGACCTGACAGATGTGCAAGATGAGAACTTCAATGCCAACCATGCACTAAGTGGTCTGGAGCGAGATAGGCTTGCACTTAATCTCACACTGCGGCAGCTCGACCAGCATCTTGACTTGCTCAAACATTCAAACTTCCTGG
Seq A exon
GTGAGTTGTTAGCCAACTAGGCAGGTGGACCAGGGTCAGTCTTCAGCTGACTGTCTGCCTCTGCCCAATTTAG
Seq C2 exon
GTGCCTATGACAGCATCCGGCATGCCCATAGCCAGTCTGCAGAGGCAGAACGTCGTGCCAATACCTCAGCCCTGGCAGTACCTAGCCCTGTGAGCAACTCGGCAAGTGCTCGGCATCGGACAGAGGCACTGATGGATGCTCAGAAGGAGGACTTCAACAGCAAACACATGGCCAACCAGCGGGCACTTGGCAAGCTCTCTGCCCATACCCACACCCTGAGCCTGACAGACATAAATGAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000172037-LAMB2:NM_002292:25
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.745
Domain overlap (PFAM):
C1:
PF041117=APG6=FE(39.5=100),PF086146=ATG16=PD(39.0=95.2)
A:
NA
C2:
PF041117=APG6=PD(8.3=16.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGACCAGCATCTTGACTTGC
R:
GCATCCATCAGTGCCTCTGTC
Band lengths:
181-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)